Mining the low molecular weight proteome of blood

Proteomics - Clinical Applications

Volumn 1, Issue 8, 2007, Pages 758-768

  Drake, Richard R ^a   Cazares, Lisa ^a   Semmes, O John ^a  

^a EASTERN VIRGINIA MEDICAL SCHOOL   (United States)

Author keywords

Mass spectrometry; Peptidomics; Serum; Serum biomarkers; Serum proteome

Indexed keywords

ALBUMIN; ALPHA CRYSTALLIN; ALPHA DEFENSIN; ANDROGEN RECEPTOR; APOLIPOPROTEIN A2; BETA CRYSTALLIN; BETA DEFENSIN; BRCA2 PROTEIN; C REACTIVE PROTEIN; CITRIC ACID; EDETIC ACID; EPHRIN A2; EPIDERMAL GROWTH FACTOR; EPIDERMAL GROWTH FACTOR RECEPTOR KINASE; FIBRIN; FIBRINOGEN; G PROTEIN COUPLED RECEPTOR; GUANINE NUCLEOTIDE BINDING PROTEIN; HAPTOGLOBIN; HEPARIN; PREALBUMIN; PROTEOME; SERUM AMYLOID A; SOMATOMEDIN C; TISSUE INHIBITOR OF METALLOPROTEINASE 1; TUMOR NECROSIS FACTOR ALPHA;

ALZHEIMER DISEASE; BLADDER CANCER; BREAST CANCER; CANCER GROWTH; CANCER RISK; CARCINOGENESIS; COLON CANCER; DIAGNOSTIC ACCURACY; DIAGNOSTIC VALUE; DISEASE MARKER; ELECTROSPRAY MASS SPECTROMETRY; ENZYME LINKED IMMUNOSORBENT ASSAY; HUMAN; INNATE IMMUNITY; ION CYCLOTRON RESONANCE MASS SPECTROMETRY; LIQUID CHROMATOGRAPHY; LUNG NON SMALL CELL CANCER; MALIGNANT TRANSFORMATION; MATRIX ASSISTED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; MOLECULAR WEIGHT; OVARY CANCER; PANCREAS CANCER; PRIORITY JOURNAL; PROSTATE CANCER; PROTEIN ANALYSIS; PROTEIN BLOOD LEVEL; PROTEIN DEGRADATION; PROTEIN DEPLETION; PROTEIN EXPRESSION; PROTEIN FOLDING; PROTEIN FUNCTION; PROTEIN LOCALIZATION; PROTEIN PHOSPHORYLATION; PROTEOMICS; REVIEW; SENSITIVITY AND SPECIFICITY; SEPARATION TECHNIQUE; SIGNAL TRANSDUCTION; SURFACE ENHANCED LASER DESORPTION IONIZATION TIME OF FLIGHT MASS SPECTROMETRY; TUBERCULOSIS; TUMOR IMMUNITY;

EID: 38349182728     PISSN: 18628346     EISSN: None     Source Type: Journal    
DOI: 10.1002/prca.200700175     Document Type: Review

References (111)

1. Zhou, M., Prieto, D. A., Lucas, D. A., Chan, K. C. et al., J. Proteome Res. 2006, 5, 2007-2216.
2. Anderson, N. L., Polanski, M., Pieper, R., Gatlin, T. et al., Mol. Cell. Proteomics 2004, 3, 311-326.
3. Zhang, H., Liu, A. Y., Loriaux, P., Wolischeid, B. et al., Mol. Cell. Proteomics 2007, 6, 64-71.
4. Hogan, K. T., Coppola, M. A., Gatlin, C. L., Thompson, L. W. et al., Immunol. Lett. 2003, 90, 131-135.
5. Hogan, K. T., Sutton, J. N., Chu, K. U., Busby, J. A. et al., Cancer Immunol. Immunother. 2005, 54, 359-371.
6. Zarling, A. L., Polefrone, J. M., Evans, A. M., Mikesh, L. M. et al., Proc. Natl. Acad Sci. USA 2006, 103, 14889-14894.
7. Blume-Jensen, R, Hunter, T., Nature 2001, 411, 355-365.
8. George, D. J., Urology 2002, 60, 1150-121; discussion 122.
9. Djakiew, D., Prostate 2000, 42, 150-160.
10. Kikawa, K. D., Vidale, D. R., Van Etten, R. L., Kinch, M. S., J. Biol. Chem. 2002, 277, 39274-39279.
11. Pierce, K. L., Premont, R. T., Lefkowitz, R. J., Nat. Rev. Mol. Cell Biol. 2002, 3, 639-650.
12. Daaka, Y., Biochim. Biophys. Acta 2002, 1582, 265-269.
13. Raj, G. V., Barki-Harrington, L., Kue, P. F., Daaka, Y., J. Urol. 2002, 167, 1458-1463.
14. Kasbohm, E. A., Guo, R., Yowell, C. W., Bagchi, G. et al., J. Biol. Chem. 2005, 280, 11583-11589.
15. Zegarra-Moro, O. L., Schmidt, L. J., Huang, H., Tindall, D. J., Cancer Res. 2002, 62, 1008-1013.
16. Ciocca, D. R., Calderwood, S. K., Cell. Stress Chaperones 2005, 10, 86-103.
17. Blagosklonny, M. V., J. Natl. Cancer Inst. 2001, 93, 239-240.
18. Moyano, J. V., Evans, J. R., Chen, F., Lu, M. et al, J. Clin. Invest. 2006, 116, 261-270.
19. Ganz, T., Science 2002, 298, 977-979.
20. Gallo, R. L., Murakami, M., Ohtake, T., Zaiou, M., J. Allergy Clin. Immunol. 2002, 110, 823-831.
21. Albrethsen, J., Bogebo, R., Gammeltoft, S., Olsen, J. et al., BMC Cancer 2005, 5, 8.
22. Holterman, D. A., Diaz, J. I., Blackmore, P. F., Davis, J. W. et al., Urol. Oncol. 2006, 24, 97-108.
23. Vlahou, A., Schellhammer, P. F., Mendrinos, S., Patel, K. et al., Am. J. Pathol. 2001, 158, 1491-1502.
24. Arimura, Y., Ashitani, J., Yanagi, S., Tokojima, M. et al., Anticancer Res. 2004, 24, 4051-4057.
25. Koomen, J. M., Shih, L. N., Coombes, K. R., Li, D. et al., Clin. Cancer Res. 2005, 11, 1110-1118.
26. Ebert, M. P., Niemeyer, D., Deininger, S. O., Wex, T. et al., J. Proteome Res. 2006, 5, 2152-2158.
27. Miguet, L., Bogumil, R., Decloquement, P., Herbrecht, R. et al., J. Proteome Res. 2006, 5, 2258-2269.
28. Gabay, C., Kushner, I., N. Engl. J. Med. 1999, 340, 448-454.
29. Fung, E. T., Yip, T. T., Lomas, L., Wang, Z. et al., Int. J. Cancer 2005, 115, 783-789.
30. Gericke, B., Raila, J., Sehouli, J., Haebel, S. et al., BMC Cancer 2005, 5, 133.
31. Semmes, O. J., Cazares, L. H., Ward, M. D., Qi, L. et al., Leukemia 2005, 19, 1229-1238.
32. Rai, A. J., Gelfand, C. A., Haywood, B. C., Warunek, D. J. et al., Proteomics 2005, 5, 3262-3277.
33. Banks, R. E., Stanley, A. J., Cairns, D. A., Barrett, J. H. et al., Clin. Chem. 2005, 51, 1637-1649.
34. Capila, I., Linhardt, R. J., Angew. Chem. Int. Ed. Engl. 2002, 47, 391-412.
35. Tammen, H., Schulte, I., Hess, R., Menzel, C. et al., Proteomics 2005, 5, 3414-3422.
36. Favaloro, E. J., Soltani, S., McDonald, J., Am. J. Clin. Pathol. 2004, 122, 686-692.
37. West-Nielsen, M., Hogdall, E. V., Marchiori, E., Hogdall, C. K. et al., Anal. Chem. 2005, 77, 5114-5123.
38. Drake, R. R., Cazares, L. H., Malik, G., Corsica, A. et al., Bioprocess. J. 2004, 3, 45-50.
39. de Noo, M. E., Tollenaar, R. A., Ozalp, A., Kuppen, P. J. et al., Anal. Chem. 2005, 77, 7232-7241.
40. Baumann, S., Ceglarek, U., Fiedler, G. M., Lembcke, J. et al., Clin. Chem. 2005, 51, 973-980.
41. Luque-Garcia, J. L., Neubert, T. A., J. Chromatogr. A. 2007, 1153, 259-276.
42. Villar-Garea, A., Griese, M., Imhof, A., J. Chromatogr B Analyt Technol. Biomed. Life Sci. 2007, 849, 105-114.
43. Villanueva, J., Philip, J., Entenberg, D., Chaparro, C. A. et al., Anal. Chem. 2004, 76, 1560-1570.
44. Semmes, O. J., Feng, Z., Adam, B. L., Banez, L. L. et al., Clin. Chem. 2005, 51, 102-112.
45. Villanueva, J., Martorelia, A. J., Lawlor, K., Philip, J. et al., Mol. Coll. Proteomics 2006, 5, 1840-1852.
46. Villanueva, J., Shaffer, D. R., Philip, J., Chaparro, C. A. et al., J. Clin. Invest. 2006, 116, 271-284.
47. Orvisky, E., Drake, S. K., Martin, B. M., Abdel-Hamid, M. et al., Proteomics 2006, 6, 2895-2902.
48. Koomen, J. M., Li, D., Xiao, L. C., Liu, T. C. et al., J. Proteome Res. 2005, 4, 972-981.
49. Ogata, Y., Hepplmann, C. J., Chariesworth, M. C., Madden, B. J. et al., J. Proteome Res. 2006, 5, 3318-3325.
50. Cheng, A. J., Chen, L. C., Chien, K. Y., Chen, Y. J. et al., Clin. Chem. 2005, 51, 2236-2244.
51. Theodorescu, D., Wittke, S., Ross, M. M., Walden, M. et al., Lancet Oncol. 2006, 7, 230-240.
52. Zimmerman, L. J., Wernke, G. R., Caprioli, R. M., Liebler, D. C., J. Proteome Res. 2005, 4, 1672-1680.
53. Lowenthal, M. S., Mehta, A. I., Frogale, K., Bandle, R. W. et al., Clin. Chem. 2005, 51, 1933-1945.
54. Tirumalai, R. S., Chan, K. C., Prieto, D. A., Issaq, H. J. et al., Mol. Cell. Proteomics 2003, 2 1096-1103.
55. Tanaka, Y, Akiyama, H., Kuroda, T., Jung, G. et al., Proteomics 2006, 6, 4845-4855.
56. Terracciano, R., Gaspari, M., Testa, F., Pasqua, L. et al., Proteomics 2006, 6, 3243-3250.
57. Vallant, R. M., Szabo, Z., Trojer, L., Najam-Ul-Haq, M. et al., J. Proteome Res. 2007, 6, 44-53.
58. Rainer, M., Muhammad, N. U., Huck, C. W., Feuerstein, I. et al., Rapid Commun. Mass Spectrom. 2006, 20, 2954-2960.
59. Zolotarjova, N., Martosella, J., Nicol, G., Bailey, J. et al., Proteomics 2005, 5, 3304-3313.
60. Bjorhall, K., Miliotis, T., Davidsson, P, Proteomics 2005, 5, 307-317.
61. Huang, L., Harvie, G., Feitelson, J. S., Gramatikoff, K. et al., Proteomics 2005, 5, 3314-3328.
62. Moritz, R. L., Clippingdale, A. B., Kapp, E. A., Eddes, J. S. et al., Proteomics 2005, 5, 3402-3413.
63. Echan, L. A., Tang, H. Y, Ali-Khan, N., Lee, K., Speicher, D. W., Proteomics 2005, 5, 3292-3303.
64. Tang, H. Y., Ali-Khan, N., Echan, L. A., Levenkova, N. et al., Proteomics 2005, 5, 3329-3342.
65. Colantonio, D. A., Dunkinson, C., Bovenkamp, D. E., Van Eyk, J. E., Proteomics 2005, 5, 3831-3835.
66. Fu, Q., Garnham, C. R, Elliott, S. T., Bovenkamp, D. E., Van Eyk, J. E., Proteomics 2005, 5, 2656-2664.
67. Granger, J., Siddiqui, J., Copeland, S., Remick, D., Proteomics 2005, 5, 4713-4718.
68. Shen, Y, Kim, J., Strittmatter, E. F., Jacobs, J. M. et al, Proteomics 2005, 5, 4034-4045.
69. Lopez, M. F., Mikulskis, A., Kuzdzal, S., Bennett, D. A. et al., Clin. Chem. 2005, 51, 1946-1954.
70. Petricoin, E. F., Belluco, C., Araujo, R. P., Liotta, L. A., Nat. Rev. Cancer 2006, 6, 961-967.
71. Zhou, M., Lucas, D. A., Chan, K. C., Issaq, H. J. et al., Electrophoresis 2004, 25, 1289-1298.
72. Song, J., Patel, M., Rosenzweig, C. N., Chan-Li, Y. et al., Clin. Chem. 2006, 52, 1045-1053.
73. Ludwig, J. A., Weinstein, J. N., Nat. Rev. Cancer 2005, 5, 845-856.
74. Wuhrer, M., Catalina, M. I., Deelder, A. M., Hokke, C. H., J. Chromatogr. B Analyt. Technol. Biomed. Life Sci. 2006.
75. Block, T. M., Comunale, M. A., Lowman, M., Steel, L. F. et al., Proc. Natl. Acad Sci. USA 2005, 102, 779-784.
76. Wada, Y., Azadi, P., Costello, C. E., Dell, A. et al., Glycobiology 2007, 17, 411-422.
77. Geyer, H., Geyer, R., Biochim. Biophys. Acta 2006, 1764, 1853-1869.
78. Lis, H., Sharon, N., Chem. Rev. 1998, 98, 637-674.
79. Hirabayashi, J., Glycoconj. J. 2004, 21, 35-40.
80. Novotny, M. V., Mechref, Y., J. Sep. Sci. 2005, 28, 1956-1968.
81. Fromell, K., Andersson, M., Elihn, K., Caldwell, K. D., Colloids Surf. B Biointerfaces 2005, 46, 84-91.
82. Liu, T., Qian, W. J., G ritsenko, M. A., Camp, D. G., II et al., J. Proteome Res. 2005, 4, 2070-2080.
83. Qiu, R., Zhang, X, Regnier, F. E., J. Chromatogr. B Analyt. Technol. Biomed. Life Sci. 2007, 845, 143-150.
84. Zhang, H., Li, X. J., Martin, D. B., Aebersold, R., Nat. Biotechnol. 2003, 21, 660-666.
85. Wang, Y., Wu, S. L., Hancock, W. S., Glycobiology 2006, 16, 514-523.
86. Madera, M., Machref, Y., Klouckova, I., Novotny, M. V., J. Proteome Res. 2006, 5, 2348-2363.
87. Kuno, A., Uchiyama, N., Koseki-Kuno, S., Ebe, Y. et al., Nat. Methods 2005, 2, 851-856.
88. Mao, X., Luo, Y., Dai, Z, Wang, K. et al., Anal. Chem. 2004, 76, 6941-6947.
89. Drake, R. R., Schwegler, E. E., Malik, G., Diaz, J. et al., Mol. Cell. Proteomics 2006, 5, 1957-1967.
90. Sparbier, K., Koch, S., Kessler, I., Wenzel, T., Kostrzewa, M., J. Biomol. Tech. 2005, 16, 407-413.
91. Adam, B. L., Vlahou, A., Semmes, O. J., Wright, G. L., Jr., Proteomics 2001, 1, 1264-1270.
92. Gong, Y., Li, X., Yang, B., Ying, W. et al., J. Proteome Res. 2006, 5, 1379-1387.
93. Hurst, G. B., Buchanan, M. V., Foote, L. J., Kennel, S. J., Anal. Chem. 1999, 71, 4727-4733.
94. Jiang, Y., Lee, C. S., J. Mass Spectrom. 2001, 36, 664-669.
95. Malik, G., Ward, M. D., Gupta, S. K., Trosset, M. W. et al., Clin. Cancer Res. 2005, 11, 1073-1085.
96. Nelson, R. W., Krone, J. R., Bieber, A. L., Williams, P., Anal. Chem. 1995, 67, 1153-1158.
97. Peter, J. F., Tomer, K. B., Anal. Chem. 2001, 73, 4012-4019.
98. Scrivener, E., Barry, R., Platt, A., Calvert, R. et al., Proteomics 2003, 3, 122-128.
99. Gao, W. M., Kulck, R., Orchekowski, R. P., Misek, D. E. et al., BMC Cancer 2005, 5, 110.
100. Okuyama, N., Ide, Y., Na kano, M., Nakagawa, T et al., Int. J. Cancer 2006, 118, 2803-2808.
101. Bharti, A., Ma, P. C., Maulik, G., Singh, R. et al., Anticancer Res. 2004, 24, 1031-1038.
102. Ye, B., Cramer, D. W., Skates, S. J., Gygi, S. P. et al., Clin. Cancer Res. 2003, 9, 2904-2911.
103. Kuvibidila, S., Rayford, W., J. Lab. Clin. Med. 2006, 147, 174-181.
104. Ahmed, N., Barker, G., Oliva, K. T., Hoffmann, P. et al., Br. J. Cancer 2004, 91, 129-140.
105. Ang, I. L., Poon, T. C., Lai, P. B., Chan, A. T et al., J. Proteome Res. 2006, 5, 2691-2700.
106. Schrader, M., Schulz-Knappe, P., Trends Biotechnol. 2001, 19, S55-S60.
107. Hunt, D. F., Henderson, R. A., Shabanowitz, J., Sakaguchi, K. et al., Science 1992, 255, 1261-1263.
108. Appella, E., Padlan, E. A., Hunt, D. F., EXS 1995, 73, 105-119.
109. Gebreselassie, D., Spiegel, H., Vukmanovic, S., Hum. Immunol. 2006, 67, 894-906.
110. Herr, W., Ranieri, E., Gambotto, A., Kierstead, L. S. et al., Proc. Natl. Acad. Sci. USA 1999, 96, 12033-12038.
111. Agranoff, D., Fernandez-Reyes, D., Papadopoulos, M. C., Rojas, S. A. et al., Lancet 2006, 366, 1012-1021.